Job ID = 2008337 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 11,609,029 reads read : 23,218,058 reads written : 23,218,058 rm: cannot remove ‘[DSE]RR*’: No such file or directory fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:15:32 11609029 reads; of these: 11609029 (100.00%) were paired; of these: 535940 (4.62%) aligned concordantly 0 times 10402935 (89.61%) aligned concordantly exactly 1 time 670154 (5.77%) aligned concordantly >1 times ---- 535940 pairs aligned concordantly 0 times; of these: 171485 (32.00%) aligned discordantly 1 time ---- 364455 pairs aligned 0 times concordantly or discordantly; of these: 728910 mates make up the pairs; of these: 655829 (89.97%) aligned 0 times 49631 (6.81%) aligned exactly 1 time 23450 (3.22%) aligned >1 times 97.18% overall alignment rate Time searching: 00:15:32 Overall time: 00:15:32 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 12 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 2349292 / 11215704 = 0.2095 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Fri, 05 Jul 2019 19:40:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Fri, 05 Jul 2019 19:40:22: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:40:22: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:40:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Fri, 05 Jul 2019 19:40:23: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:40:23: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:40:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Fri, 05 Jul 2019 19:40:24: #1 read tag files... INFO @ Fri, 05 Jul 2019 19:40:24: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 19:40:32: 1000000 INFO @ Fri, 05 Jul 2019 19:40:32: 1000000 INFO @ Fri, 05 Jul 2019 19:40:33: 1000000 INFO @ Fri, 05 Jul 2019 19:40:41: 2000000 INFO @ Fri, 05 Jul 2019 19:40:42: 2000000 INFO @ Fri, 05 Jul 2019 19:40:42: 2000000 INFO @ Fri, 05 Jul 2019 19:40:50: 3000000 INFO @ Fri, 05 Jul 2019 19:40:51: 3000000 INFO @ Fri, 05 Jul 2019 19:40:52: 3000000 INFO @ Fri, 05 Jul 2019 19:40:59: 4000000 INFO @ Fri, 05 Jul 2019 19:41:00: 4000000 INFO @ Fri, 05 Jul 2019 19:41:04: 4000000 INFO @ Fri, 05 Jul 2019 19:41:08: 5000000 INFO @ Fri, 05 Jul 2019 19:41:09: 5000000 INFO @ Fri, 05 Jul 2019 19:41:15: 5000000 INFO @ Fri, 05 Jul 2019 19:41:17: 6000000 INFO @ Fri, 05 Jul 2019 19:41:18: 6000000 INFO @ Fri, 05 Jul 2019 19:41:26: 6000000 INFO @ Fri, 05 Jul 2019 19:41:27: 7000000 INFO @ Fri, 05 Jul 2019 19:41:27: 7000000 INFO @ Fri, 05 Jul 2019 19:41:36: 8000000 INFO @ Fri, 05 Jul 2019 19:41:36: 8000000 INFO @ Fri, 05 Jul 2019 19:41:37: 7000000 INFO @ Fri, 05 Jul 2019 19:41:46: 9000000 INFO @ Fri, 05 Jul 2019 19:41:46: 9000000 INFO @ Fri, 05 Jul 2019 19:41:48: 8000000 INFO @ Fri, 05 Jul 2019 19:41:55: 10000000 INFO @ Fri, 05 Jul 2019 19:41:55: 10000000 INFO @ Fri, 05 Jul 2019 19:41:59: 9000000 INFO @ Fri, 05 Jul 2019 19:42:04: 11000000 INFO @ Fri, 05 Jul 2019 19:42:05: 11000000 INFO @ Fri, 05 Jul 2019 19:42:11: 10000000 INFO @ Fri, 05 Jul 2019 19:42:14: 12000000 INFO @ Fri, 05 Jul 2019 19:42:14: 12000000 INFO @ Fri, 05 Jul 2019 19:42:23: 11000000 INFO @ Fri, 05 Jul 2019 19:42:23: 13000000 INFO @ Fri, 05 Jul 2019 19:42:23: 13000000 INFO @ Fri, 05 Jul 2019 19:42:32: 14000000 INFO @ Fri, 05 Jul 2019 19:42:32: 14000000 INFO @ Fri, 05 Jul 2019 19:42:35: 12000000 INFO @ Fri, 05 Jul 2019 19:42:42: 15000000 INFO @ Fri, 05 Jul 2019 19:42:42: 15000000 INFO @ Fri, 05 Jul 2019 19:42:46: 13000000 INFO @ Fri, 05 Jul 2019 19:42:51: 16000000 INFO @ Fri, 05 Jul 2019 19:42:51: 16000000 INFO @ Fri, 05 Jul 2019 19:42:57: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 19:43:00: 17000000 INFO @ Fri, 05 Jul 2019 19:43:01: 17000000 INFO @ Fri, 05 Jul 2019 19:43:08: 15000000 INFO @ Fri, 05 Jul 2019 19:43:09: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:43:09: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:43:09: #1 total tags in treatment: 8731459 INFO @ Fri, 05 Jul 2019 19:43:09: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:43:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 19:43:09: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:43:09: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:43:09: #1 total tags in treatment: 8731459 INFO @ Fri, 05 Jul 2019 19:43:09: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:43:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 19:43:09: #1 tags after filtering in treatment: 4331441 INFO @ Fri, 05 Jul 2019 19:43:09: #1 Redundant rate of treatment: 0.50 INFO @ Fri, 05 Jul 2019 19:43:09: #1 finished! INFO @ Fri, 05 Jul 2019 19:43:09: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:43:09: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:43:09: #1 tags after filtering in treatment: 4331441 INFO @ Fri, 05 Jul 2019 19:43:09: #1 Redundant rate of treatment: 0.50 INFO @ Fri, 05 Jul 2019 19:43:09: #1 finished! INFO @ Fri, 05 Jul 2019 19:43:09: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:43:09: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:43:09: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:43:09: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Fri, 05 Jul 2019 19:43:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 19:43:09: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:43:09: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Fri, 05 Jul 2019 19:43:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 19:43:19: 16000000 INFO @ Fri, 05 Jul 2019 19:43:29: 17000000 INFO @ Fri, 05 Jul 2019 19:43:38: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 19:43:38: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 19:43:38: #1 total tags in treatment: 8731459 INFO @ Fri, 05 Jul 2019 19:43:38: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 19:43:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 19:43:39: #1 tags after filtering in treatment: 4331441 INFO @ Fri, 05 Jul 2019 19:43:39: #1 Redundant rate of treatment: 0.50 INFO @ Fri, 05 Jul 2019 19:43:39: #1 finished! INFO @ Fri, 05 Jul 2019 19:43:39: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 19:43:39: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 19:43:39: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 19:43:39: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Fri, 05 Jul 2019 19:43:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585845/ERX585845.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling